SMTL ID : 7f96.1

Plasmodium falciparum Prolyl-tRNA Synthetase (PfPRS) in Complex with L-proline and compound L95

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.58 Å

Oligo State

homo-dimer

Ligands

2 x JE6: ~{N}-[4-[(3~{S})-3-cyano-3-cyclopropyl-2-oxidanylidene-pyrrolidin-1-yl]-6-methyl-pyridin-2-yl]-2-phenyl-ethanamide(Non-covalent)

JE6.1: 20 residues within 4Å: Chain A: R.141, E.143, K.145, Q.146, P.147, F.150, I.151, R.152, T.153, R.154, F.156, W.158, Q.226, A.227, A.228, T.229, G.261, T.263, R.265 Ligands: PRO.2 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:E.143, A:E.143, A:K.145, A:F.156, A:W.158, A:T.263 Hydrogen bonds: A:R.152, A:T.153, A:T.153 pi-Stacking: A:F.156 JE6.3: 20 residues within 4Å: Chain B: R.141, E.143, K.145, Q.146, P.147, F.150, I.151, R.152, T.153, R.154, F.156, W.158, Q.226, A.227, A.228, T.229, G.261, T.263, R.265 Ligands: PRO.4 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:E.143, B:E.143, B:K.145, B:F.156, B:W.158, B:T.263 Hydrogen bonds: B:E.143, B:R.152, B:T.153, B:T.153, B:T.263 pi-Stacking: B:F.156

2 x PRO: PROLINE(Non-covalent)

PRO.2: 13 residues within 4Å: Chain A: T.110, E.112, R.141, W.158, E.160, H.162, F.205, T.229, H.231, S.259, W.260, G.261 Ligands: JE6.1 11 PLIP interactions: 9 interactions with chain A, 2 Ligand-Ligand interactions Hydrophobic interactions: A:W.158, A:E.160 Hydrogen bonds: A:T.110, A:T.110, A:S.259, P.2, P.2 Water bridges: A:R.141, A:R.141 Salt bridges: A:R.141, A:H.231 PRO.4: 13 residues within 4Å: Chain B: T.110, E.112, R.141, W.158, E.160, H.162, F.205, T.229, H.231, S.259, W.260, G.261 Ligands: JE6.3 13 PLIP interactions: 11 interactions with chain B, 2 Ligand-Ligand interactions Hydrophobic interactions: B:W.158, B:E.160 Hydrogen bonds: B:T.110, B:T.110, B:T.110, B:T.229, B:S.259, P.4, P.4 Water bridges: B:R.141, B:R.141 Salt bridges: B:R.141, B:H.231

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mishra, S. et al., PfPRS with ATP binding pocket inhibitor. To Be Published

Release Date

2023-01-04

Peptides

Proline--tRNA ligase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Proline--tRNA ligase

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